self_tallyprepfun: Preparing usable tally files from raw data

In ruy204/FiTnEss: FiTnEss: Finding TnSeq Essential Genes

Usage

tallyprepfun(strain, file_location)

Arguments

strain	strain name
file_location	full path of all raw tally files, replicates are separated by "," without space

Details

This is a function for raw tally data processing. Input data are raw tally files and strain type, output data are usable tally files for downstream analysis.

Current available strain options include c("PA14","X13273","PS75","CF77","BWH015","BWH013","BWH005","BL23","19660").

Raw data are usually .txt files, which contain two columns: . Example of raw data see data("PA14_raw_tally")

Value

A list containing all usable tally files of each replicate will be returned.

For example, list(usable_replicate1,usable_replicate2)

See Also

import_raw_tally

calc_TApos

find_homo

denote_coreTA

Examples

data("PA14_raw_tally")
usable_list<-tallyprepfun("PA14","PA14_raw_tally_rep1,PA14_raw_tally_rep2")

own_data<-tallyprepfun("CF77","/folder1/CF77_rep1.txt,/folder1/CF77_rep2.txt,/folder1/CF77_rep3.txt")

ruy204/FiTnEss documentation built on Jan. 23, 2021, 2:52 a.m.